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A higher-order numerical framework for stochastic simulation of chemical reaction systems.

Abstract:

BACKGROUND: In this paper, we present a framework for improving the accuracy of fixed-step methods for Monte Carlo simulation of discrete stochastic chemical kinetics. Stochasticity is ubiquitous in many areas of cell biology, for example in gene regulation, biochemical cascades and cell-cell interaction. However most discrete stochastic simulation techniques are slow. We apply Richardson extrapolation to the moments of three fixed-step methods, the Euler, midpoint and θ-trapezoidal τ-leap m...

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Publication status:
Published

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Publisher copy:
10.1186/1752-0509-6-85

Authors


Székely, T More by this author
Burrage, K More by this author
More by this author
Institution:
University of Oxford
Department:
Oxford, MPLS, Mathematical Inst
Zygalakis, KC More by this author
Journal:
BMC systems biology
Volume:
6
Issue:
1
Pages:
85
Publication date:
2012
DOI:
EISSN:
1752-0509
ISSN:
1752-0509
URN:
uuid:ad92aba3-6894-43e3-934d-7b76f16aff34
Source identifiers:
369839
Local pid:
pubs:369839

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